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Proteins. 1999 May 15;35(3):313-20.

Assigning secondary structure from protein coordinate data.

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Department of Biochemistry and Biophysics, Oregon State University, Corvallis 97331-7305, USA.


We have developed a program to convert the three dimensional coordinates describing protein structure in the Brookhaven Data Bank into an assignment of secondary structure. The program assigns secondary structure in the same way a person assigns structure visually. It uses two angles and three distances to assign alpha-helix, 3(10)-helix, beta-strand, hydrogen-bonded beta-turn, non-hydrogen-bonded beta-turn, and poly (L-proline) II type 3(1)-helix. The program is concerned with amide-amide interactions and should be particularly useful to spectroscopists.

[Indexed for MEDLINE]

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